Cone‐setting in spruce is regulated by conserved elements of the age‐dependent flowering pathway

Akhter, Shirin; Westrin, Karl Johan; Zivi, Nathan; Nordal, Veronika; Kretzschmar, Warren W.; Delhomme, Nicolas; Street, Nathaniel R.; Nilsson, Ove; Emanuelsson, Olof; Sundström, Jens F.

doi:10.1111/nph.18449

Cited by 10 publications

(5 citation statements)

References 56 publications

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“…7 ). The miR156 - SPL module has been implicated in the regulation of flowering in both the perennial herb Arabis alpina ( 52 ) and the conifer tree Picea abies ( 53 ). To what extent the miR156-SPL module regulates flowering onset in Populus merits further investigation.…”

Section: Discussionmentioning

confidence: 99%

Age-dependent seasonal growth cessation in Populus

Liao,

Su,

Klintenäs

et al. 2023

Proc. Natl. Acad. Sci. U.S.A.

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In temperate and boreal regions, perennial plants adapt their annual growth cycle to the change of seasons. In natural forests, juvenile seedlings usually display longer growth seasons compared to adult trees to ensure their establishment and survival under canopy shade. However, how trees adjust their annual growth according to their age is not known. In this study, we show that age-dependent seasonal growth cessation is genetically controlled and found that the miR156-SPL3/5 module, a key regulon of vegetative phase change (VPC), also triggers age-dependent growth cessation in Populus trees. We show that miR156 promotes shoot elongation during vegetative growth, and its targets SPL3/5s function in the same pathway but as repressors. We find that the miR156-SPL3/5s regulon controls growth cessation in both leaves and shoot apices and through multiple pathways, but with a different mechanism compared to how the miR156-SPL regulon controls VPC in annual plants. Taken together, our results reveal an age-dependent genetic network in mediating seasonal growth cessation, a key phenological process in the climate adaptation of perennial trees.

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Section: Discussionmentioning

confidence: 99%

Age-dependent seasonal growth cessation in Populus

Liao,

Su,

Klintenäs

et al. 2023

Proc. Natl. Acad. Sci. U.S.A.

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“…The most common case is that a reference gene is represented in (i.e., is aligned to) only one cluster, although it is quite common that a reference gene, and its corresponding isoforms, is represented in more than one cluster (Figure S.19). In fact, ClusTrast was used in our recent study (Akhter et al, 2022) to detect isoforms in individual gene families of specific biological interest. The core step of ClusTrast is the clusterwise assembly, which is followed by concatenation of the clusterwise assemblies, and finally by merging with the primary assembly (and removal of duplicates).…”

Section: Discussionmentioning

confidence: 99%

ClusTrast: a short readde novotranscript isoform assembler guided by clustered contigs

Westrin

Kretzschmar

Emanuelsson

2022

Preprint

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Motivation: Transcriptome assembly from RNA sequencing data in species without a reliable reference genome has to be performed de novo, but studies have shown that de novo methods often have inadequate reconstruction ability of transcript isoforms. This impedes the study of alternative splicing, in particular for lowly expressed isoforms. Result: We present the de novo transcript isoform assembler ClusTrast, which clusters a set of guiding contigs by similarity, aligns short reads to the guiding contigs, and assembles each clustered set of short reads individually. We tested ClusTrast on datasets from six eukaryotic species, and showed that ClusTrast reconstructed more expressed known isoforms than any of the other tested de novo assemblers, at a moderate reduction in precision. An appreciable fraction were reconstructed to at least 95% of their length. We suggest that ClusTrast will be useful for studying alternative splicing in the absence of a reference genome. Availability and implementation: The code and usage instructions are available at https://github.com/karljohanw/clustrast.

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“…In Arabidopsis , SPLs are key components of the aging pathway in regulating the transition from plant vegetative growth to reproductive development ( Wang, 2014 ). SPLs also act as activators of flowering by regulating flower meristem identity genes in Arabis alpina ( Akhter et al., 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Genetic studies on continuous flowering in woody plant Osmanthus fragrans

Wang

Gao²,

Chen³

et al. 2022

Front. Plant Sci.

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Continuous flowering is a key horticultural trait in ornamental plants, whereas the specific molecular regulation mechanism remains largely unknown. In sweet osmanthus (Osmanthus fragrans Lour.), plants based on their flowering characteristics are divided into once-flowering (OF) habit and continuous flowering (CF) habit. Here, we first described the flowering phenology shifts of OF and CF habits in sweet osmanthus through paraffin section and microscope assay. Phenotypic characterization showed that CF plants had constant new shoot growth, floral transition, and blooming for 1 year, which might lead to a continuous flowering trait. We performed the transcriptome sequencing of OF and CF sweet osmanthus and analyzed the transcriptional activity of flowering-related genes. Among the genes, three floral integrators, OfFT, OfTFL1, and OfBFT, had a differential expression during the floral transition process in OF and CF habits. The expression patterns of the three genes in 1 year were revealed. The results suggested that their accumulations corresponded to the new shoots occurring and the floral transition process. Function studies suggested that OfFT acted as a flowering activator, whereas OfBFT was a flowering inhibitor. Yeast one-hybrid assay indicated that OfSPL8 was a common upstream transcription factor of OfFT and OfBFT, suggesting the vital role of OfSPL8 in continuous flowering regulation. These results provide a novel insight into the molecular mechanism of continuous flowering.

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Cone‐setting in spruce is regulated by conserved elements of the age‐dependent flowering pathway

Cited by 10 publications

References 56 publications

Age-dependent seasonal growth cessation in Populus

Age-dependent seasonal growth cessation in Populus

ClusTrast: a short readde novotranscript isoform assembler guided by clustered contigs

Genetic studies on continuous flowering in woody plant Osmanthus fragrans

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